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Genetic Dissection of Component Traits for Salinity Tolerance at Reproductive Stage in Rice

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Abstract

Rice is highly sensitive to salt stress at flowering stage. With the objective of detection of quantitative trait loci (QTLs) in multi-environment for this stage, 180 backcross-derived lines (BC3F5) from salt tolerant donor Pokkali (AC41585) and recurrent parent IR 64 were subjected to evaluation in saline (EC = 8 dSm−1) and non-saline environments in wet season of 2014 and 2015 employing a novel phenotyping protocol. Nine multi-environmental consistent QTLs for spikelet degeneration, K+ concentration in flag leaf, stress susceptibility index for grain (SSI-Grain) and spikelet sterility (SSI-STE) on chromosomes1, 2, 3, 4 and 11 with 17–42% phenotypic variances were detected. Among several digenic epistatic interactions, one was associated with the main effect QTL (qSSI-STE-11-1) over the years. Similarly genotype × environment interaction associated with two additive QTLs, qDEG-S-2-2 and qSSI-STE-2-1 had positive effect on the resultant phenotype. Functional genes encoding calmodulin-binding protein and potassium transporter were predicted inside the consistent QTLs. Detected stable QTLs, associated markers, predicted genes and derived introgression lines with these QTLs could be utilized in future breeding programme.

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Funding

Authors acknowledge received funding from the Director, ICAR-National Rice Research Institute, Cuttack and ICAR funded project ‘National Innovation on Climate Resilient Agriculture’, New Delhi.

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Authors and Affiliations

  1. ICAR-National Rice Research Institute, Cuttack, Odisha, India

    Krishnendu Chattopadhyay, Sangram Keshori Mohanty, Bishnu Charan Marndi, Kutubuddin Ali Molla, Koushik Chakraborty & Ramani Kumar Sarkar

  2. ICAR- Central Island Agricultural Research Institute, Port Blair, Andaman and Nicobar Island, India

    Joshitha Vijayan

  3. ICAR-Central Institute for Women in Agriculture, Bhubaneswar, Odisha, India

    Ananta Sarkar

  4. ICAR-Central Research Institute for Jute and Allied Fibres, Barrackpore, West Bengal, India

    Soham Ray

Authors
  1. Krishnendu Chattopadhyay
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  2. Sangram Keshori Mohanty
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  3. Joshitha Vijayan
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  4. Bishnu Charan Marndi
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  5. Ananta Sarkar
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  6. Kutubuddin Ali Molla
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  7. Koushik Chakraborty
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  8. Soham Ray
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  9. Ramani Kumar Sarkar
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Contributions

KC made design of the experiment and drafted manuscript. SKM, JV and BCM implemented experiments and analyse data. RKS coordinated the study. KAM and JV assisted in selection of markers and linkage mapping. AS statistically analysed the data. SR analysed molecular data. KOC and RKS assisted in preparing manuscript and revised the manuscript.

Corresponding author

Correspondence to Krishnendu Chattopadhyay.

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Key message

• Employing a population using salt tolerant donor at reproductive stage, Pokkali (AC 41585), nine multi-environmental consistent QTLs for spikelet degeneration, spikelet sterility, K+ concentration at flag leaf, etc. were discovered.

• Two genotype × environment interaction QTLs and one digenic-epistatic QTL were detected with synergistic effect on the main effect QTLs.

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Chattopadhyay, K., Mohanty, S.K., Vijayan, J. et al. Genetic Dissection of Component Traits for Salinity Tolerance at Reproductive Stage in Rice. Plant Mol Biol Rep 39, 386–402 (2021). https://doi.org/10.1007/s11105-020-01257-4

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